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Deep learning transformer models become important by training on text data based on self-attention mechanisms. This manuscript demonstrated a novel universal spam detection model using pre-trained Google's Bidirectional Encoder Representations from Transformers (BERT) base uncased models with four datasets by efficiently classifying ham or spam emails in real-time scenarios. Different methods for Enron, Spamassain, Lingspam, and Spamtext message classification datasets, were used to train models individually in which a single model was obtained with acceptable performance on four datasets. The Universal Spam Detection Model (USDM) was trained with four datasets and leveraged hyperparameters from each model. The combined model was finetuned with the same hyperparameters from these four models separately. When each model using its corresponding dataset, an F1-score is at and above 0.9 in individual models. An overall accuracy reached 97%, with an F1 score of 0.96. Research results and implications were discussed.

Pre-trained protein models (PTPMs) represent a protein with one fixed embedding and thus are not capable for diverse tasks. For example, protein structures can shift, namely protein folding, between several conformations in various biological processes. To enable PTPMs to produce task-aware representations, we propose to learn interpretable, pluggable and extensible protein prompts as a way of injecting task-related knowledge into PTPMs. In this regard, prior PTPM optimization with the masked language modeling task can be interpreted as learning a sequence prompt (Seq prompt) that enables PTPMs to capture the sequential dependency between amino acids. To incorporate conformational knowledge to PTPMs, we propose an interaction-conformation prompt (IC prompt) that is learned through back-propagation with the protein-protein interaction task. As an instantiation, we present a conformation-aware pre-trained protein model that learns both sequence and interaction-conformation prompts in a multi-task setting. We conduct comprehensive experiments on nine protein datasets. Results confirm our expectation that using the sequence prompt does not hurt PTPMs' performance on sequence-related tasks while incorporating the interaction-conformation prompt significantly improves PTPMs' performance on tasks where conformational knowledge counts. We also show the learned prompts can be combined and extended to deal with new complex tasks.

We apply topological data analysis methods to loss functions to gain insights into learning of deep neural networks and deep neural networks generalization properties. We use the Morse complex of the loss function to relate the local behavior of gradient descent trajectories with global properties of the loss surface. We define the neural network Topological Obstructions score, "TO-score", with the help of robust topological invariants, barcodes of the loss function, that quantify the "badness" of local minima for gradient-based optimization. We have made experiments for computing these invariants for fully-connected, convolutional and ResNet-like neural networks on different datasets: MNIST, Fashion MNIST, CIFAR10, CIFAR100 and SVHN. Our two principal observations are as follows. Firstly, the neural network barcode and TO score decrease with the increase of the neural network depth and width, thus the topological obstructions to learning diminish. Secondly, in certain situations there is an intriguing connection between the lengths of minima segments in the barcode and the minima generalization errors.

Drug Discovery is a fundamental and ever-evolving field of research. The design of new candidate molecules requires large amounts of time and money, and computational methods are being increasingly employed to cut these costs. Machine learning methods are ideal for the design of large amounts of potential new candidate molecules, which are naturally represented as graphs. Graph generation is being revolutionized by deep learning methods, and molecular generation is one of its most promising applications. In this paper, we introduce a sequential molecular graph generator based on a set of graph neural network modules, which we call MG^2N^2. At each step, a node or a group of nodes is added to the graph, along with its connections. The modular architecture simplifies the training procedure, also allowing an independent retraining of a single module. Sequentiality and modularity make the generation process interpretable. The use of graph neural networks maximizes the information in input at each generative step, which consists of the subgraph produced during the previous steps. Experiments of unconditional generation on the QM9 and Zinc datasets show that our model is capable of generalizing molecular patterns seen during the training phase, without overfitting. The results indicate that our method is competitive, and outperforms challenging baselines for unconditional generation.

Pre-trained language model representations have been successful in a wide range of language understanding tasks. In this paper, we examine different strategies to integrate pre-trained representations into sequence to sequence models and apply it to neural machine translation and abstractive summarization. We find that pre-trained representations are most effective when added to the encoder network which slows inference by only 14%. Our experiments in machine translation show gains of up to 5.3 BLEU in a simulated resource-poor setup. While returns diminish with more labeled data, we still observe improvements when millions of sentence-pairs are available. Finally, on abstractive summarization we achieve a new state of the art on the full text version of CNN/DailyMail.

Recently advancements in sequence-to-sequence neural network architectures have led to an improved natural language understanding. When building a neural network-based Natural Language Understanding component, one main challenge is to collect enough training data. The generation of a synthetic dataset is an inexpensive and quick way to collect data. Since this data often has less variety than real natural language, neural networks often have problems to generalize to unseen utterances during testing. In this work, we address this challenge by using multi-task learning. We train out-of-domain real data alongside in-domain synthetic data to improve natural language understanding. We evaluate this approach in the domain of airline travel information with two synthetic datasets. As out-of-domain real data, we test two datasets based on the subtitles of movies and series. By using an attention-based encoder-decoder model, we were able to improve the F1-score over strong baselines from 80.76 % to 84.98 % in the smaller synthetic dataset.

Learning to construct text representations in end-to-end systems can be difficult, as natural languages are highly compositional and task-specific annotated datasets are often limited in size. Methods for directly supervising language composition can allow us to guide the models based on existing knowledge, regularizing them towards more robust and interpretable representations. In this paper, we investigate how objectives at different granularities can be used to learn better language representations and we propose an architecture for jointly learning to label sentences and tokens. The predictions at each level are combined together using an attention mechanism, with token-level labels also acting as explicit supervision for composing sentence-level representations. Our experiments show that by learning to perform these tasks jointly on multiple levels, the model achieves substantial improvements for both sentence classification and sequence labeling.

Most previous work on neural text generation from graph-structured data relies on standard sequence-to-sequence methods. These approaches linearise the input graph to be fed to a recurrent neural network. In this paper, we propose an alternative encoder based on graph convolutional networks that directly exploits the input structure. We report results on two graph-to-sequence datasets that empirically show the benefits of explicitly encoding the input graph structure.

Despite the numerous developments in object tracking, further development of current tracking algorithms is limited by small and mostly saturated datasets. As a matter of fact, data-hungry trackers based on deep-learning currently rely on object detection datasets due to the scarcity of dedicated large-scale tracking datasets. In this work, we present TrackingNet, the first large-scale dataset and benchmark for object tracking in the wild. We provide more than 30K videos with more than 14 million dense bounding box annotations. Our dataset covers a wide selection of object classes in broad and diverse context. By releasing such a large-scale dataset, we expect deep trackers to further improve and generalize. In addition, we introduce a new benchmark composed of 500 novel videos, modeled with a distribution similar to our training dataset. By sequestering the annotation of the test set and providing an online evaluation server, we provide a fair benchmark for future development of object trackers. Deep trackers fine-tuned on a fraction of our dataset improve their performance by up to 1.6% on OTB100 and up to 1.7% on TrackingNet Test. We provide an extensive benchmark on TrackingNet by evaluating more than 20 trackers. Our results suggest that object tracking in the wild is far from being solved.